Package: DAPAR
Type: Package
Title: Tools for the Differential Analysis of Proteins Abundance with R
Version: 1.26.0
Date: 2021-10-28
Authors@R: c(person(given = "Samuel", family = "Wieczorek",
            email = "samuel.wieczorek@cea.fr",
    role = c("aut","cre")),
            person(given = "Florence", family ="Combes",
            email = "florence.combes@cea.fr",
    role = "aut"),
            person(given = "Thomas", family ="Burger",
            email = "thomas.burger@cea.fr",
    role = "aut"),
            person(given = "Vasile-Cosmin", family ="Lazar",
            email = "vcosminlazar@gmail.com",
    role = "ctb"),
		person(given = "Enora", family ="Fremy",
            email = "enora.fremy@cea.fr",
    role = "ctb"),
    	person(given = "Helene", family ="Borges",
            email = "helene.borges@cea.fr",
    role = "ctb"))
Maintainer: Samuel Wieczorek <samuel.wieczorek@cea.fr>
Description: This package contains a collection of functions for the
    visualisation and the statistical analysis of proteomic data.
License: Artistic-2.0
VignetteBuilder: knitr
Depends: R (>= 4.1.0)
Suggests: BiocGenerics, testthat, BiocStyle
Imports: Biobase, MSnbase, tibble, RColorBrewer, stats, preprocessCore,
        Cairo, png, lattice, reshape2, gplots, pcaMethods, ggplot2,
        limma, knitr, tmvtnorm, norm, impute, stringr, grDevices,
        graphics, openxlsx, utils, cp4p (>= 0.3.5), scales, Matrix,
        vioplot, imp4p (>= 1.1), forcats, methods, DAPARdata (>=
        1.23.4), siggenes, graph, lme4, readxl, highcharter,
        clusterProfiler, dplyr, tidyr, AnnotationDbi, tidyverse, vsn,
        FactoMineR, factoextra, multcomp, purrr, visNetwork, foreach,
        parallel, doParallel, igraph, dendextend, Mfuzz, apcluster,
        diptest, cluster
biocViews: Proteomics, Normalization, Preprocessing, MassSpectrometry,
        QualityControl, GO, DataImport
NeedsCompilation: no
RoxygenNote: 7.1.2
Packaged: 2021-10-28 23:33:50 UTC; biocbuild
Encoding: UTF-8
URL: http://www.prostar-proteomics.org/
BugReports: https://github.com/samWieczorek/DAPAR/issues
Collate: agregation.R anova_analysis.R bioAnalysis.R clustering.R
        compute.t.tests.R DiffAnalysis.R get_pep_prot_cc.R metacell.R
        inOutFiles.R limmaAnalysis.R logText.R missingValuesFilter.R
        missingValuesImputation_PeptideLevel.R
        missingValuesImputation_ProteinLevel.R normalize.R pepa.R
        plots_boxplot.R plots_compare_Norm.R plots_corr_matrix.R
        plots_density.R plots_density_CV.R plots_heatmaps.R plots_pca.R
        plots_violin.R utils.R volcanoPlot.R palette.R hypothesisTest.R
        metacell_Plots.R
git_url: https://git.bioconductor.org/packages/DAPAR
git_branch: RELEASE_3_14
git_last_commit: fa089c3
git_last_commit_date: 2021-10-28
Date/Publication: 2021-10-28
Author: Samuel Wieczorek [aut, cre],
  Florence Combes [aut],
  Thomas Burger [aut],
  Vasile-Cosmin Lazar [ctb],
  Enora Fremy [ctb],
  Helene Borges [ctb]
Built: R 4.1.1; ; 2021-10-29 15:44:14 UTC; unix
